Nonribosomal code: Difference between revisions

Revision as of 22:19, 11 July 2020

Revision as of 16:52, 9 December 2020

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The '''nonribosomal code''' refers to key amino acid residues and their positions within the primary sequence of an adenylation ___domain of a [[nonribosomal peptide synthetase]] used to predict substrate specificity and thus (partially) the final product. Analogous to the nonribosomal code is prediction of peptide composition by DNA/RNA codon reading, which is well supported by the [[central dogma of molecular biology]] and accomplished using the genetic code simply by following the [[DNA codon table]] or [[RNA codon table]]. However, prediction of natural product/secondary metabolites by the nonribosomal code is not as concrete as DNA/RNA codon-to-amino acid and much research is still needed to have a broad-use code. The increasing number of sequenced genomes and high-throughput prediction software has allowed for better elucidation of predicted substrate specificity and thus natural products/secondary metabolites. Enzyme characterization by, for example, ATP-pyrophosphate exchange assays for substrate specificity, ''in silico'' substrate-binding pocket modelling and structure-function mutagenesis (''in vitro'' tests or ''in silico'' modelling) helps support predictive algorithms. Much research has been done on bacteria and fungi, with prokaryotic bacteria having easier-to-predict products.

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The A-domains have 8 amino acid-long non-ribosomal signatures.<ref>{{Cite book|last=Compeau, Phillip,|url=https://www.worldcat.org/oclc/1060570224|title=Bioinformatics algorithms : an active learning approach|others=Pevzner, Pavel,.|isbn=978-0-9903746-3-3|edition=3rd|___location=San Diego, CA|oclc=1060570224}}</ref>.

'''LTKVGHIG''' → Asp (Aspartic acid)